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Group: EisenLab - with tag phylogeny [19 articles]

Recent papers posted by members of the EisenLab group with tag phylogeny
  • The effect of the guide tree on multiple sequence alignments and subsequent phylogenetic analyses.
    Pac Symp Biocomput (2008), pp. 25-36.
    by S Nelesen, K Liu, D Zhao, CR Linder, T Warnow
    posted to accuracy alignment alignment_accuracy method multiple_alignment phylogeny reconstruction by dpollard to the group EisenLab on 2008-02-01 06:14:52 as **
  • Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes
    Genome Res. (7 November 2007), gr.7105007.
    by Matthew D Rasmussen, Manolis Kellis
    posted to drosophila method phylogeny prediction yeast by dpollard to the group EisenLab on 2007-11-21 02:56:16 as read along with 2 people stajich caseybrown
  • Bayesian estimation of concordance among gene trees.
    Mol Biol Evol, Vol. 24, No. 2. (February 2007), pp. 412-426.
    by C Ané, B Larget, DA Baum, SD Smith, A Rokas
    posted to concordance gene_tree gene_vs_species_tree method phylogeny speciation by dpollard to the group EisenLab on 2007-11-06 22:35:21 as *** along with 1 person AaronDarling
  • Enhancing the quality of phylogenetic analysis using fuzzy hidden Markov model alignments.
    Medinfo, Vol. 12, No. Pt 2. (2007), pp. 1245-1249.
    by C Collyda, S Diplaris, P Mitkas, N Maglaveras, C Pappas
    posted to alignment alignment_accuracy method phylogeny by dpollard to the group EisenLab on 2007-10-25 02:23:23 as **
  • The human phylome
    Genome Biology, Vol. 8 (13 June 2007), R109.
    by Jaime Huerta-Cepas, Hernán Dopazo, Joaquín Dopazo, Toni Gabaldón
    posted to round_robin phylogeny human genome_wide genealogy gene_tree eisen_journal_club dan_presented by dpollard to the group EisenLab on 2007-06-29 06:01:12 as *** along with 4 people and 1 group aprasad grahamc cjeans sgoetz ParkinsonLab_at_MaRS
  • Research on the karyotype and evolution of Drosophila melanogaster species group.
    J Genet Genomics, Vol. 34, No. 3. (March 2007), pp. 196-213.
    by Q Deng, Q Zeng, Y Qian, C Li, Y Yang
    posted to phylogeny karyotype drosophila by dpollard to the group EisenLab on 2007-06-13 22:27:37 as ***
  • Incorporating Indel Information into Phylogeny Estimation for Rapidly Emerging Pathogens
    BMC Evolutionary Biology, Vol. 7 (14 March 2007), 40.
    by Benjamin D Redelings, Marc A Suchard
    posted to phylogeny method indels gene alignment by dpollard to the group EisenLab on 2007-03-22 22:56:37 as ** along with 2 people aprasad stajich
  • PhyloScan: Identification of transcription factor binding sites using cross-species evidence
    Algorithms for Molecular Biology, Vol. 2 (23 January 2007), 1.
    by Steven C Carmack, Lee A Mccue, Lee A Newberg, Charles E Lawrence
    posted to prediction phylogeny comparative binding_site by dpollard to the group EisenLab on 2007-02-01 19:41:57 as ** along with 3 people dquest lusk nklee
  • A Phylogenomic Study of Human, Dog, and Mouse.
    PLoS Comput Biol, Vol. 3, No. 1. (5 January 2007)
    by Gina Cannarozzi, Adrian Schneider, Gaston Gonnet
    posted to whole_genome phylogeny mammal by dpollard to the group EisenLab on 2007-01-27 21:59:31 as ** along with 2 people aprasad Garamonfok
  • Evaluating Support for the Current Classification of Eukaryotic Diversity
    PLoS Genetics, Vol. 2, No. 12. (1 December 2006), e220.
    by Laura W Parfrey, Erika Barbero, Elyse Lasser, Micah Dunthorn, Debashish Bhattacharya, David J Patterson, Laura A Katz
    posted to phylogeny eukaryotic by emilyhare to the group EisenLab on 2007-01-17 03:46:15 as ** along with 1 person mblwhoi
  • A Fungal phylogeny based on 42 complete genomes derived from supertree and combined gene analysis
    BMC Evolutionary Biology, Vol. 6 (22 November 2006), 99.
    by David A Fitzpatrick, Mary E Logue, Jason E Stajich, Geraldine Butler
    posted to phylogeny yeast by dpollard to the group EisenLab on 2006-12-01 23:41:24 as *** along with 4 people stajich lusk cmzmasek druvus
  • Position specific variation in the rate of evolution in transcription factor binding sites.
    BMC Evol Biol, Vol. 3, No. 1. (28 August 2003)
    by AM Moses, DY Chiang, M Kellis, ES Lander, MB Eisen
    posted to binding conserved constraint evolution noncoding pattern phylogeny prediction pwm rate selection specific transcription by dpollard to the group EisenLab on 2006-11-07 00:22:07 as read along with 6 people and 1 group briann adepace lusk nklee cisevol emptyhb cis-regulatory-evolution
  • Evolutionary distances for protein-coding sequences: modeling site-specific residue frequencies.
    Mol Biol Evol, Vol. 15, No. 7. (July 1998), pp. 910-917.
    by AL Halpern, WJ Bruno
    posted to constraint evolution model motif mutation phylogeny selection by dpollard to the group EisenLab on 2006-11-07 00:11:19 as read along with 1 person lusk
  • Repeated morphological evolution through cis-regulatory changes in a pleiotropic gene
    Nature, Vol. 440, No. 7087., pp. 1050-1053.
    by Benjamin Prud'homme, Nicolas Gompel, Antonis Rokas, Victoria A Kassner, Thomas M Williams, Shu-Dan Yeh, John R True, Sean B Carroll
    posted to adaptive binding crm development drosophila expression gene insect phylogeny turnover by dpollard to the group EisenLab on 2006-11-06 23:55:32 as read along with 9 people carlfulp RMGraze balicea tny adepace ranb Garamonfok blobbybirdman emptyhb
  • A Chloroplast Genealogy of Hordeum (Poaceae): Long-term Persisting Haplotypes, Incomplete Lineage Sorting, Regional Extinction, and the Consequences for Phylogenetic Inference.
    Mol Biol Evol (5 June 2006)
    by Sabine S S Jakob, Frank R R Blattner
    posted to lineage phylogeny reconstruction sorting by dpollard to the group EisenLab on 2006-07-13 19:13:23 as ***
  • An Improved Statistical Method for Detecting Heterotachy in Nucleotide Sequences.
    Mol Biol Evol (3 May 2006)
    by Guy Baele, Jeroen Raes, Yves Van de Peer, Stijn Vansteelandt
    posted to bootstrap heterotachy phylogeny by dpollard to the group EisenLab on 2006-06-13 18:51:01 as **
  • Phylogeny of Eunicida (Annelida) and Exploring Data Congruence Using a Partition Addition Bootstrap Alteration (PABA) Approach
    Systematic Biology, Vol. 55, No. 1. (February 2006), pp. 1-20.
    by Torsten Struck, Gunter Purschke, Kenneth Halanych
    posted to bootstrap concatonation phylogeny reconstruction tree by dpollard to the group EisenLab on 2006-04-26 04:23:14 as **
  • Toward Automatic Reconstruction of a Highly Resolved Tree of Life
    Science, Vol. 311, No. 5765. (3 March 2006), pp. 1283-1287.
    by Francesca D Ciccarelli, Tobias Doerks, Christian von Mering, Christopher J Creevey, Berend Snel, Peer Bork
    posted to concatonation life phylogeny reconstruction tree by dpollard to the group EisenLab on 2006-03-21 19:02:31 as **** along with 15 people and 5 groups kinestetika dparks Retchless knaseanka tny dchughes nirfriedman cmm azazello wenhan maximilianh cmzmasek lonshy diamantis Ema microbiology_nijmegen FAB-lab G4ID Genetics-of-Gambling MBLAB
  • Detecting putative orthologs.
    Bioinformatics, Vol. 19, No. 13. (1 September 2003), pp. 1710-1711.
    by DP Wall, HB Fraser, AE Hirsh
    posted to orthology phylogeny protein by indigoviolet to the group EisenLab on 2005-11-13 02:27:31 as read along with 5 people and 2 groups ana dquest ninch rvosa cerca structural_bioinformatics Bioinformatics
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